Locus 14436

Sequence ID dm3.chrX
Location 13,301,780 – 13,301,957
Length 177
Max. P 0.800529
window19875 window19876

overview

Window 5

Location 13,301,780 – 13,301,884
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 88.46
Shannon entropy 0.16293
G+C content 0.46056
Mean single sequence MFE -31.20
Consensus MFE -26.01
Energy contribution -27.23
Covariance contribution 1.23
Combinations/Pair 1.07
Mean z-score -1.89
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.73
SVM RNA-class probability 0.800529
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13301780 104 - 22422827
AAUGUGGAACUUAAUGCCCUCAAAAGAGGGGCGUGUCUGGCCGGCGAAAGUCAAAGUCAUUGUCAAUGUCGCCUGUUUGGAGCCAUUUAGUUUCUGUUUAGGUU
.....((((((.(((((((((....)))))((...((..((.(((((..(.(((.....))).)....))))).))..)).)))))).)))))).......... ( -29.80, z-score =  -1.18, R)
>droSec1.super_21 1054188 98 - 1102487
AAUGUAGGAAUUAAUGCCCUCAAAAGGGGGGCUUGUCUGGCCGGCGAAAGGCAAAGUCAUUGUCAAUGUCUCCUGUUUGGAGUGUUUUAGUUUCUGUU------
....((((((((((.(((..((((.((((((((((.(((((.(.(....).)...))))..).))).))))))).))))..).)).))))))))))..------ ( -32.10, z-score =  -2.64, R)
>droSim1.chrX 10194062 104 - 17042790
AAUGUAGGAAUUAAUGCCCUCAAAAGGGGGGCGUGUCUGGCCGGCGAAAGGCAAAGUCAUUGUCAAUGUCGCCUGUUUGGAGUGUUUUAGUCUCUGUUUCUGUU
....(((..((((((((((((.....)))))))).((..((.(((((..(((((.....)))))....))))).).)..))......))))..)))........ ( -31.70, z-score =  -1.86, R)
>consensus
AAUGUAGGAAUUAAUGCCCUCAAAAGGGGGGCGUGUCUGGCCGGCGAAAGGCAAAGUCAUUGUCAAUGUCGCCUGUUUGGAGUGUUUUAGUUUCUGUUU__GUU
....((((((((((.((((((.....))))))...((..((.(((((..(((((.....)))))....))))).).)..)).....))))))))))........ (-26.01 = -27.23 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 13,301,848 – 13,301,957
Length 109
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 67.92
Shannon entropy 0.60401
G+C content 0.45494
Mean single sequence MFE -25.85
Consensus MFE -9.91
Energy contribution -10.47
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -1.40
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.529014
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13301848 109 - 22422827
CACGGCCCGAAUUCGAGAAACCUGAUAAGGAACGAUAAGGGAACUGAAAUC-----GGGAAUCGCAAUUGGAAUUGAAAAUGUGGAACUUAAUGCCCUCAAAAGAGGGGCGUGU
((((.(((((.(((......(((....))).......((....))))).))-----)))..(((((.((........)).))))).........(((((....))))).)))). ( -30.50, z-score =  -2.07, R)
>droAna3.scaffold_13248 1269678 84 - 4840945
UUUGAUUCCGAGUCGA-AAAUUUGGCAAUUAUAGAUAACGAUACCGGAAU-----------------------------ACGAAAGAAUUAUUGCCCUCGAAAGGGGGGCGUGU
((((((((((.((((.-..(((((.......)))))..))))..))))))-----------------------------.))))..........(((((....)))))...... ( -23.10, z-score =  -1.89, R)
>droEre2.scaffold_4690 5180162 99 + 18748788
--------GAAUUCGA-AAACCUGAUAACGAACGAUAAGGGAACUGGAAUC------GGCAUUGGAAUUGGGGUGGCAAAUGGAGGAAUUGAUGCCCUCAAAAGGGGGGCGUGU
--------.(((((..-...((..((..(((.((((.((....))...)))------)...)))..))..))((.....))....))))).((((((((.....)))))))).. ( -26.90, z-score =  -1.88, R)
>droYak2.chrX 7580980 88 - 21770863
--------GAAUUCGA-AAACCUGAUAACGAGCGAUAAGAGAAUUUGGAC-----------UUGGAAUUGGG------CAUGGAGCAAUGAGUGCCCUCAAAAGAGGGGCGUGU
--------........-...((..((..(((((.(..........).).)-----------)))..))..))------((((..((.....)).(((((....))))).)))). ( -18.70, z-score =  -0.26, R)
>droSec1.super_21 1054250 114 - 1102487
CAAAGGCCGAAUUCGAGAAACCUGAUAAGGAACGAUAAGGGAACUGGAAUCGGAAUCGGAAUAGCAAUUGGAAUUGGAAAUGUAGGAAUUAAUGCCCUCAAAAGGGGGGCUUGU
......((((.(((......(((....)))..((((.((....))...))))))))))).....((((....)))).................((((((.....)))))).... ( -25.90, z-score =  -0.87, R)
>droSim1.chrX 10194130 114 - 17042790
CACGGGCCAAAUUCGAGAAACCUGAUAAGGAACGAUAAGGGAACUGGAAUCGGAAUCGGAAUCGCAAUUGGAAUUGGAAAUGUAGGAAUUAAUGCCCUCAAAAGGGGGGCGUGU
.(((..((((.(((((....(((....)))..((((.((....))...))))...............))))).))))...)))........((((((((.....)))))))).. ( -30.00, z-score =  -1.44, R)
>consensus
CA_GG_CCGAAUUCGA_AAACCUGAUAAGGAACGAUAAGGGAACUGGAAUC______GGAAUCGCAAUUGGAAUUG_AAAUGUAGGAAUUAAUGCCCUCAAAAGGGGGGCGUGU
...........................................................................................((((((((.....)))))))).. ( -9.91 = -10.47 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:40:08 2011